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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ), 'gf_id' => 'HOM05D001034', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001034' ), 'data_identifier' => 'HOM05D001034', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001034', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p24600' => 'bna', 'A02p13400' => 'bna', 'A03p41380' => 'bna', 'A05p29850' => 'bna', 'A06p06740' => 'bna', 'A06p06750' => 'bna', 'A06p18040' => 'bna', 'A08p03360' => 'bna', 'A08p03370' => 'bna', 'A08p34200' => 'bna', 'A08p34210' => 'bna', 'Aa31LG10G4030' => 'aar', 'Aa31LG10G4050' => 'aar', 'Aa31LG1G16290' => 'aar', 'Aa31LG1G4810' => 'aar', 'Aa31LG1G4830' => 'aar', 'Aa31LG4G18160' => 'aar', 'Aa31LG7G1460' => 'aar', 'Aa31LG8G6510' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3208' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3524' => 'aag', 'Actinidia04062' => 'ach', 'Actinidia10237' => 'ach', 'Actinidia11954' => 'ach', 'Actinidia19282' => 'ach', 'Actinidia36412' => 'ach', 'Ah.03g139510' => 'amhyb', 'Ah.05g166880' => 'amhyb', 'Ah.09g230390' => 'amhyb', 'Ah.11g039210' => 'amhyb', 'AL1G20760' => 'aly', 'AL1G20774' => 'aly', 'AL1G57670' => 'aly', 'AL1G57690' => 'aly', 'AL1G57710' => 'aly', 'AL1G57740' => 'aly', 'AL3G33180' => 'aly', 'AL5G29630' => 'aly', 'AL8G43500' => 'aly', 'Aqoxy1G03498' => 'aox', 'Aqoxy7G01409' => 'aox', 'Aqoxy7G01411' => 'aox', 'Aqoxy7G04074' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0M5HS4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.77GZB8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CI4QJS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DJ2BV6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EX7W4E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GL6CS5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HXA1EW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K7MEI8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KY2SNP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q6CHQR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UIBC0V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WXR6C4' => 'arhy', 'AT1G10060' => 'ath', 'AT1G10070' => 'ath', 'AT1G50090' => 'ath', 'AT1G50110' => 'ath', 'AT3G19710' => 'ath', 'AT3G49680' => 'ath', 'ATR0661G172' => 'atr', 'ATR0807G064' => 'atr', 'ATR0807G104' => 'atr', 'ATR0807G192' => 'atr', 'Atru.chr13.890' => 'acertr', 'Atru.chr13.894' => 'acertr', 'Atru.chr13.895' => 'acertr', 'Atru.chr13.896' => 'acertr', 'Atru.chr3.1078' => 'acertr', 'Atru.chr5.2198' => 'acertr', 'AUR62003156' => 'cqu', 'AUR62003158' => 'cqu', 'AUR62007978' => 'cqu', 'AUR62021367' => 'cqu', 'AUR62021368' => 'cqu', 'AUR62033279' => 'cqu', 'AUR62033280' => 'cqu', 'AUR62033281' => 'cqu', 'AUR62034980' => 'cqu', 'AUR62039336' => 'cqu', 'BcaB01g00684' => 'bca', 'BcaB04g17274' => 'bca', 'BcaB04g19058' => 'bca', 'BcaB05g23137' => 'bca', 'BcaB05g24142' => 'bca', 'BcaB06g26042' => 'bca', 'BcaB06g26043' => 'bca', 'BcaB07g33459' => 'bca', 'BcaB07g33462' => 'bca', 'BcaB07g33463' => 'bca', 'BcaB07g33464' => 'bca', 'BcaC01g03608' => 'bca', 'BcaC02g12590' => 'bca', 'BcaC03g14724' => 'bca', 'BcaC04g21702' => 'bca', 'BcaC05g24812' => 'bca', 'BcaC05g24813' => 'bca', 'BcaC05g28423' => 'bca', 'BcaC05g28831' => 'bca', 'BcaC07g38560' => 'bca', 'BcaC07g38561' => 'bca', 'BcaC07g38562' => 'bca', 'BcaC07g39430' => 'bca', 'BcaC07g41843' => 'bca', 'BcaC08g43195' => 'bca', 'BcaC09g49966' => 'bca', 'BolC1t03003H' => 'bol', 'BolC2t08304H' => 'bol', 'BolC3t14965H' => 'bol', 'BolC3t17345H' => 'bol', 'BolC3t17351H' => 'bol', 'BolC3t21259H' => 'bol', 'BolC3t21260H' => 'bol', 'BolC4t23087H' => 'bol', 'BolC5t29574H' => 'bol', 'BolC5t29575H' => 'bol', 'BolC5t33230H' => 'bol', 'BolC6t35625H' => 'bol', 'BolC8t48968H' => 'bol', 'BolC8t48969H' => 'bol', 'BolC8t50083H' => 'bol', 'BolC8t52449H' => 'bol', 'BolC9t56518H' => 'bol', 'BraA01t02371Z' => 'bra', 'BraA02t06399Z' => 'bra', 'BraA03t13292Z' => 'bra', 'BraA05t21834Z' => 'bra', 'BraA06t23545Z' => 'bra', 'BraA06t23888Z' => 'bra', 'BraA06t23889Z' => 'bra', 'BraA06t24893Z' => 'bra', 'BraA08t32368Z' => 'bra', 'BraA08t32369Z' => 'bra', 'BraA08t35332Z' => 'bra', 'BraA08t35333Z' => 'bra', 'BraA09t41864Z' => 'bra', 'C01p30690' => 'bna', 'C02p21700' => 'bna', 'C03p50560' => 'bna', 'C03p50630' => 'bna', 'C03p89440' => 'bna', 'C03p89460' => 'bna', 'C04p00790' => 'bna', 'C05p08230' => 'bna', 'C05p08240' => 'bna', 'C05p45050' => 'bna', 'C06p04970' => 'bna', 'C06p05000' => 'bna', 'C08p13380' => 'bna', 'C08p13390' => 'bna', 'C08p24690' => 'bna', 'C08p49150' => 'bna', 'C09p36870' => 'bna', 'CAN.G1343.19' => 'can', 'CAN.G416.36' => 'can', 'CAN.G840.8' => 'can', 'CAN.G975.3' => 'can', 'CANSAT21G0312' => 'cansat', 'CANSAT21G0415' => 'cansat', 'CANSAT21G1883' => 'cansat', 'CANSAT21G2604' => 'cansat', 'CANSAT21G2608' => 'cansat', 'CANSAT25G3376' => 'cansat', 'CARHR010170' => 'chi', 'CARHR010180' => 'chi', 'CARHR040160' => 'chi', 'CARHR095210' => 'chi', 'CARHR158750' => 'chi', 'CARHR279780' => 'chi', 'CARHR291800' => 'chi', 'Carub.0001s0948' => 'cru', 'Carub.0001s0950' => 'cru', 'Carub.0001s3925' => 'cru', 'Carub.0001s3926' => 'cru', 'Carub.0003s1959' => 'cru', 'Carub.0004s1122' => 'cru', 'Carub.0005s1603' => 'cru', 'Ca_15881_v3' => 'car', 'Ca_16259_v3' => 'car', 'Ca_18440_v3' => 'car', 'Ca_24666_v3' => 'car', 'Ca_30000_v3' => 'car', 'CBR_g24423' => 'cbr', 'CBR_g24424' => 'cbr', 'CBR_g46674' => 'cbr', 'Cc07_g07510' => 'ccan', 'Cc10_g07820' => 'ccan', 'CDE02G4321' => 'cde', 'CDE04G0326' => 'cde', 'CDE04G2477' => 'cde', 'CDE07G0390' => 'cde', 'Cfa004747' => 'cfa', 'Cfa006786' => 'cfa', 'Cfa017910' => 'cfa', 'Cfa023231' => 'cfa', 'Ciclev10001429m.g' => 'ccl', 'Ciclev10001439m.g' => 'ccl', 'Ciclev10025674m.g' => 'ccl', 'Ciclev10028774m.g' => 'ccl', 'Ciclev10029938m.g' => 'ccl', 'Ciclev10030135m.g' => 'ccl', 'Ciclev10030144m.g' => 'ccl', 'CiPaw.05G023300' => 'cil', 'CiPaw.07G038300' => 'cil', 'CiPaw.14G124700' => 'cil', 'CiPaw.15G043700' => 'cil', 'ClCG01G017900' => 'cla', 'ClCG08G016800' => 'cla', 'COL.COLO4_08635' => 'col', 'COL.COLO4_11633' => 'col', 'COL.COLO4_17815' => 'col', 'COL.COLO4_17817' => 'col', 'COL.COLO4_17818' => 'col', 'COL.COLO4_35375' => 'col', 'COL.COLO4_35376' => 'col', 'COL.COLO4_35377' => 'col', 'Cpa.g.sc129.58' => 'cpa', 'Cpa.g.sc160.23' => 'cpa', 'Cpa.g.sc20.77' => 'cpa', 'Cpa.g.sc20.78' => 'cpa', 'Cre02.g081400' => 'cre', 'Cre05.g245900' => 'cre', 'CsaV3_2G025820' => 'csa', 'CsaV3_6G044420' => 'csa', 'CSS0003140' => 'camsi', 'CSS0006809' => 'camsi', 'CSS0023496' => 'camsi', 'CSS0036801' => 'camsi', 'CSS0039128' => 'camsi', 'CSS0044075' => 'camsi', 'DCAR_014322' => 'dca', 'DCAR_025831' => 'dca', 'DCAR_029490' => 'dca', 'Dinv07111' => 'din', 'Dinv09516' => 'din', 'Dinv24375' => 'din', 'Dinv39191' => 'din', 'Dinv44919' => 'din', 'Duzib052G1044' => 'dzi', 'Duzib093G0140' => 'dzi', 'Duzib116G0326' => 'dzi', 'Duzib132G0175' => 'dzi', 'Duzib132G0936' => 'dzi', 'Duzib147G1451' => 'dzi', 'Duzib187G1136' => 'dzi', 'Duzib264G0251' => 'dzi', 'ECA233G3472' => 'eca', 'ECA247G1698' => 'eca', 'ECA247G2004' => 'eca', 'EL10Ac1g02335' => 'bvu', 'EL10Ac6g14943' => 'bvu', 'EL10Ac8g18353' => 'bvu', 'EL10Ac8g18354' => 'bvu', 'EL10Ac9g22894' => 'bvu', 'Eucgr.F00105' => 'egr', 'Eucgr.G01131' => 'egr', 'Eucgr.I00664' => 'egr', 'Eucgr.I02510' => 'egr', 'FAN15G0684' => 'fan', 'FAN15G1689' => 'fan', 'FAN17G1587' => 'fan', 'FAN19G0276' => 'fan', 'FAN20G0693' => 'fan', 'FAN20G1333' => 'fan', 'FAN20G2045' => 'fan', 'FAN23G1668' => 'fan', 'FAN24G0451' => 'fan', 'FAN24G0684' => 'fan', 'FAN24G1889' => 'fan', 'FAN24G1931' => 'fan', 'FAN24G2058' => 'fan', 'FAN26G3394' => 'fan', 'FAN27G2716' => 'fan', 'FAN27G2926' => 'fan', 'FAN27G3061' => 'fan', 'FAN28G0136' => 'fan', 'FvH4_1g18510' => 'fve', 'FvH4_2g02760' => 'fve', 'FvH4_2g02870' => 'fve', 'FvH4_2g32420' => 'fve', 'FvH4_2g32430' => 'fve', 'Glyma.01G196300' => 'gma', 'Glyma.04G049200' => 'gma', 'Glyma.06G050100' => 'gma', 'Glyma.07G168700' => 'gma', 'Glyma.07G186000' => 'gma', 'Glyma.07G186100' => 'gma', 'Glyma.08G063000' => 'gma', 'Glyma.08G063167' => 'gma', 'Glyma.08G063233' => 'gma', 'Glyma.08G063300' => 'gma', 'Glyma.11G045300' => 'gma', 'Gohir.A01G179600' => 'ghi', 'Gohir.A01G180000' => 'ghi', 'Gohir.A02G079800' => 'ghi', 'Gohir.A05G212900' => 'ghi', 'Gohir.A05G263700' => 'ghi', 'Gohir.A06G027100' => 'ghi', 'Gohir.A11G211200' => 'ghi', 'Gohir.A12G073933' => 'ghi', 'Gohir.D01G170500' => 'ghi', 'Gohir.D01G170800' => 'ghi', 'Gohir.D02G087650' => 'ghi', 'Gohir.D05G216300' => 'ghi', 'Gohir.D05G266000' => 'ghi', 'Gohir.D06G024400' => 'ghi', 'Gohir.D11G211900' => 'ghi', 'Gohir.D12G077901' => 'ghi', 'Gorai.002G212000' => 'gra', 'Gorai.002G212600' => 'gra', 'Gorai.005G098300' => 'gra', 'Gorai.007G227600' => 'gra', 'Gorai.008G086600' => 'gra', 'Gorai.009G223000' => 'gra', 'Gorai.009G277800' => 'gra', 'Gorai.010G028900' => 'gra', 'GSVIVG01002251001' => 'vvi', 'GSVIVG01009276001' => 'vvi', 'GSVIVG01009278001' => 'vvi', 'HanXRQChr07g0190981' => 'han', 'HanXRQChr08g0226391' => 'han', 'HanXRQChr08g0226411' => 'han', 'HanXRQChr13g0390501' => 'han', 'HanXRQChr13g0390511' => 'han', 'HanXRQChr13g0390911' => 'han', 'Haze_00896' => 'cav', 'Haze_03971' => 'cav', 'Haze_10340' => 'cav', 'Haze_10341' => 'cav', 'Haze_10344' => 'cav', 'Haze_18240' => 'cav', 'Haze_27363' => 'cav', 'Hma1.2p1_0424F.1_g150330' => 'hma', 'Hma1.2p1_0424F.1_g150340' => 'hma', 'Hma1.2p1_0477F.1_g161040' => 'hma', 'Hma1.2p1_2651F.1_g326160' => 'hma', 'HPP92_007714' => 'vpl', 'HPP92_008276' => 'vpl', 'HPP92_020622' => 'vpl', 'HPP92_023758' => 'vpl', 'HPP92_023761' => 'vpl', 'Hund05258' => 'sun', 'Hund19536' => 'sun', 'Lalb_Chr09g0327091' => 'lal', 'Lalb_Chr09g0327101' => 'lal', 'Lalb_Chr11g0063061' => 'lal', 'Lalb_Chr16g0379021' => 'lal', 'Lalb_Chr16g0383221' => 'lal', 'Lalb_Chr23g0267691' => 'lal', 'Lj1g0016090' => 'lja', 'Lj1g0025744' => 'lja', 'Lj2A424T68' => 'lonja', 'Lj2g0023341' => 'lja', 'Lj4A168T49' => 'lonja', 'Lj4A750T29' => 'lonja', 'Lj4g0009971' => 'lja', 'Lsat_1_v5_gn_1_380' => 'lsa', 'Lsat_1_v5_gn_5_45560' => 'lsa', 'Lsat_1_v5_gn_6_10901' => 'lsa', 'Manes.05G184600' => 'mes', 'Manes.05G184700' => 'mes', 'Manes.12G118700' => 'mes', 'Manes.13G107700' => 'mes', 'Manes.18G051400' => 'mes', 'Manes.18G051500' => 'mes', 'Mapoly0063s0060' => 'mpo', 'MBI16_g09809_MAGBIO' => 'mbi', 'MCO03G265' => 'mco', 'MD02G1191100' => 'mdo', 'MD02G1191200' => 'mdo', 'MD02G1191300' => 'mdo', 'MD05G1110400' => 'mdo', 'MD05G1110500' => 'mdo', 'MD08G1075600' => 'mdo', 'MD10G1114000' => 'mdo', 'MD15G1063000' => 'mdo', 'MD15G1063100' => 'mdo', 'MD15G1302500' => 'mdo', 'Medtr3g103580' => 'mtr', 'Medtr4g092580' => 'mtr', 'Medtr4g092590' => 'mtr', 'Medtr5g014960' => 'mtr', 'MELO3C007664.2' => 'cme', 'MELO3C010776.2' => 'cme', 'Migut.C00394' => 'egut', 'Migut.C00435' => 'egut', 'Migut.H00317' => 'egut', 'MSTRG.25012' => 'ama', 'MSTRG.2800' => 'ama', 'Nitab4.5_0000170g0290' => 'nta', 'Nitab4.5_0000354g0020' => 'nta', 'Nitab4.5_0000419g0010' => 'nta', 'Nitab4.5_0000863g0170' => 'nta', 'Nitab4.5_0001646g0050' => 'nta', 'Nitab4.5_0001646g0060' => 'nta', 'Nitab4.5_0002390g0030' => 'nta', 'Nitab4.5_0002639g0010' => 'nta', 'Nitab4.5_0003478g0020' => 'nta', 'Nitab4.5_0003724g0020' => 'nta', 'Nitab4.5_0004211g0010' => 'nta', 'Nitab4.5_0005435g0010' => 'nta', 'Nitab4.5_0005435g0020' => 'nta', 'Nitab4.5_0006888g0010' => 'nta', 'Nn3g18439' => 'nnu', 'Nn4g24485' => 'nnu', 'Oeu013350.1' => 'oeu', 'Oeu013351.1' => 'oeu', 'Oeu033520.1' => 'oeu', 'Oeu049789.1' => 'oeu', 'Oeu061536.1' => 'oeu', 'Oeu061810.1' => 'oeu', 'Os03g0106400' => 'osa', 'Os03g0231600' => 'osa', 'Os04g0559400' => 'osa', 'Os05g0558400' => 'osa', 'Os10g0549500' => 'osa', 'Peaxi162Scf00096g01719' => 'pax', 'Peaxi162Scf00118g01412' => 'pax', 'Peaxi162Scf00160g00837' => 'pax', 'Peaxi162Scf00628g00006' => 'pax', 'Peaxi162Scf00628g00019' => 'pax', 'Peaxi162Scf00861g00326' => 'pax', 'Peaxi162Scf01317g00008' => 'pax', 'PGR004G0848' => 'pgr', 'PGR042G1862' => 'pgr', 'PGR083G0486' => 'pgr', 'PGR142G0528' => 'pgr', 'PGSC0003DMG400004949' => 'stu', 'PGSC0003DMG400004951' => 'stu', 'PGSC0003DMG400017100' => 'stu', 'PGSC0003DMG400021425' => 'stu', 'PGSC0003DMG401011540' => 'stu', 'PGSC0003DMG402011540' => 'stu', 'Phvul.002G008700' => 'pvu', 'Phvul.002G217400' => 'pvu', 'Phvul.002G217500' => 'pvu', 'Phvul.009G075100' => 'pvu', 'Potri.002G113600' => 'ptr', 'Potri.007G008000' => 'ptr', 'Potri.009G082600' => 'ptr', 'Potri.009G082700' => 'ptr', 'Pp3c10_12890' => 'ppa', 'Pp3c14_21300' => 'ppa', 'Pp3c17_21600' => 'ppa', 'Pp3c1_40350' => 'ppa', 'Pp3c26_5250' => 'ppa', 'Pp3c3_15010' => 'ppa', 'PRCOL_00004433' => 'pco', 'PRCOL_00004605' => 'pco', 'PRCOL_00005233' => 'pco', 'Prupe.1G416900' => 'ppe', 'Prupe.1G417000' => 'ppe', 'Prupe.1G417100' => 'ppe', 'Prupe.6G214200' => 'ppe', 'Prupe.8G155100' => 'ppe', 'Prupe.8G155300' => 'ppe', 'Prupe.8G155500' => 'ppe', 'Psat2g172600' => 'psa', 'Psat5g048560' => 'psa', 'Psat7g104760' => 'psa', 'PSO017G0879' => 'pso', 'PSO170G0075' => 'pso', 'PSO541G4234' => 'pso', 'PSO675G0934' => 'pso', 'QL02p001975' => 'qlo', 'QL02p001984' => 'qlo', 'QL02p002019' => 'qlo', 'QL05p042928' => 'qlo', 'QL06p038426' => 'qlo', 'QL11p027862' => 'qlo', 'QL11p027873' => 'qlo', 'QL11p027918' => 'qlo', 'RcHm_v2.0_Chr2g0109141' => 'rch', 'RcHm_v2.0_Chr3g0458081' => 'rch', 'RcHm_v2.0_Chr3g0458091' => 'rch', 'RcHm_v2.0_Chr3g0458121' => 'rch', 'RcHm_v2.0_Chr6g0247221' => 'rch', 'RcHm_v2.0_Chr6g0247281' => 'rch', 'RcHm_v2.0_Chr6g0247341' => 'rch', 'RcHm_v2.0_Chr6g0310241' => 'rch', 'RcHm_v2.0_Chr6g0310251' => 'rch', 'Rhsim06G0065900' => 'rsi', 'Rhsim10G0049400' => 'rsi', 'Rhsim10G0086000' => 'rsi', 'Rhsim10G0093100' => 'rsi', 'Sabra02G0090000' => 'sbr', 'Sabra07G0006200' => 'sbr', 'Sabra09G0064100' => 'sbr', 'SalBow3G2307' => 'sbo', 'SalBow7G0230' => 'sbo', 'Sc02g0008250' => 'sci', 'Sc03g0000730' => 'sci', 'Sc15g0005300' => 'sci', 'Sed0017546' => 'sed', 'Sed0027381' => 'sed', 'Sed0027666' => 'sed', 'SEGI_04997' => 'sgi', 'SEGI_30716' => 'sgi', 'SGA_v2.0_scaffold121G33070' => 'sas', 'SGA_v2.0_scaffold269G46266' => 'sas', 'SGA_v2.0_scaffold74G24538' => 'sas', 'SHI11956' => 'shi', 'SHI11958' => 'shi', 'SMO301G0008' => 'smo', 'SMO367G1060' => 'smo', 'Solyc02g091970.4' => 'sly', 'Solyc03g043880.3' => 'sly', 'Solyc04g077240.4' => 'sly', 'Solyc04g077250.4' => 'sly', 'Solyc07g021630.3' => 'sly', 'Solyc12g088220.2' => 'sly', 'Sopen02g036540' => 'spe', 'Sopen03g007690' => 'spe', 'Sopen04g030820' => 'spe', 'Sopen04g030830' => 'spe', 'Sopen07g011210' => 'spe', 'Sopen12g030220' => 'spe', 'Sp1g08710' => 'spa', 'Sp1g08730' => 'spa', 'Sp1g36940' => 'spa', 'Sp1g36950' => 'spa', 'Sp1g36970' => 'spa', 'Sp1g36980' => 'spa', 'Sp1g36990' => 'spa', 'Sp3g17750' => 'spa', 'Sp5g12410' => 'spa', 'SpUn1176_0010' => 'spa', 'TAR376G0429' => 'tar', 'TAR381G0323' => 'tar', 'TAR381G1340' => 'tar', 'TAR383G0310' => 'tar', 'TAR406G0008' => 'tar', 'TAR514G0001' => 'tar', 'TAR628G0484' => 'tar', 'TAR629G1510' => 'tar', 'TAR636G0471' => 'tar', 'TAR636G2658' => 'tar', 'TAR636G2968' => 'tar', 'THA.LOC104798381' => 'tha', 'THA.LOC104801908' => 'tha', 'THA.LOC104808469' => 'tha', 'THA.LOC104816769' => 'tha', 'THA.LOC104820011' => 'tha', 'THA.LOC104821218' => 'tha', 'THA.LOC104826506' => 'tha', 'Thecc.01G078300' => 'tca', 'Thecc.02G033400' => 'tca', 'Thecc.02G033500' => 'tca', 'Thecc.08G082200' => 'tca', 'Thecc.08G082400' => 'tca', 'Thecc.08G082500' => 'tca', 'Thhalv10007897m.g' => 'esa', 'Thhalv10007903m.g' => 'esa', 'Thhalv10010409m.g' => 'esa', 'Thhalv10011586m.g' => 'esa', 'Thhalv10011608m.g' => 'esa', 'Thhalv10012197m.g' => 'esa', 'Thhalv10021016m.g' => 'esa', 'Thhalv10026884m.g' => 'esa', 'Thhalv10029185m.g' => 'esa', 'TPR.G22333' => 'tpr', 'TPR.G27860' => 'tpr', 'TPR.G30214' => 'tpr', 'TWI12G0127' => 'twi', 'TWI12G0662' => 'twi', 'TWI53G0655' => 'twi', 'TWI56G0464' => 'twi', 'TWI56G0883' => 'twi', 'TWI74G0267' => 'twi', 'TWI77G0855' => 'twi', 'unitig_736.g22612' => 'ugi', 'unitig_748.g8381' => 'ugi', 'unitig_899.g14593' => 'ugi', 'vmacro06402' => 'vma', 'vmacro16487' => 'vma', 'VMungo0251G2749' => 'vmu', 'VMungo0251G3169' => 'vmu', 'VMungo1215G1643' => 'vmu', 'VMungo1309G1768' => 'vmu', 'VMungo1383G2872' => 'vmu', 'Zm00001eb009540' => 'zma', 'Zm00001eb022930' => 'zma', 'Zm00001eb074240' => 'zma', 'Zm00001eb404340' => 'zma' ) $gf_id = 'HOM05D001034' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001034' ) $data_identifier = 'HOM05D001034' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 28, 'aar' => (int) 8, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 9, 'aox' => (int) 4, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 17, 'bra' => (int) 13, 'can' => (int) 4, 'cansat' => (int) 6, 'chi' => (int) 7, 'cru' => (int) 7, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 7, 'cil' => (int) 4, 'cla' => (int) 2, 'col' => (int) 8, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 3, 'din' => (int) 5, 'dzi' => (int) 8, 'eca' => (int) 3, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 11, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 5, 'sun' => (int) 2, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 3, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 1, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 4, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 2, 'nta' => (int) 14, 'nnu' => (int) 2, 'oeu' => (int) 6, 'osa' => (int) 5, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 4, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 4, 'qlo' => (int) 8, 'rch' => (int) 9, 'rsi' => (int) 4, 'sbr' => (int) 3, 'sbo' => (int) 2, 'sci' => (int) 3, 'sed' => (int) 3, 'sgi' => (int) 2, 'sas' => (int) 3, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 10, 'tar' => (int) 11, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 9, 'tpr' => (int) 3, 'twi' => (int) 7, 'ugi' => (int) 3, 'vma' => (int) 2, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb404340' $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